miRNA display CGI


Results 1 - 20 of 40 are showing below:
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ID Location Perfect MFE.* RefSeq Acc. strand Start Position R_P_ratio# P value
Predicted miRNA align pattern
26867 3' -56.1 NC_005809.1 + 24965 1.07 0.000833
Target:  5'- cAUCGAGGCCGGUAUCGACAACGCGCAg -3'
miRNA:   3'- -UAGCUCCGGCCAUAGCUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 5451 0.78 0.10625
Target:  5'- -gCGAGGUCGGUAUCGACcaucACGcCGCGg -3'
miRNA:   3'- uaGCUCCGGCCAUAGCUGu---UGC-GCGU- -5'
26867 3' -56.1 NC_005809.1 + 20621 0.75 0.167117
Target:  5'- cGUCGcAGGUCGGUGUCGGCc-UGCGCu -3'
miRNA:   3'- -UAGC-UCCGGCCAUAGCUGuuGCGCGu -5'
26867 3' -56.1 NC_005809.1 + 37368 0.74 0.202533
Target:  5'- cUCGAcgugGGCaCGGUAgccggcaauaUCGACGACGUGCAg -3'
miRNA:   3'- uAGCU----CCG-GCCAU----------AGCUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 2818 0.72 0.257465
Target:  5'- cGUCG-GGCCaGGUGcucgCGGCcACGCGCAg -3'
miRNA:   3'- -UAGCuCCGG-CCAUa---GCUGuUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 16326 0.71 0.300487
Target:  5'- -gCGGGuGCCcGUGccuUCGGCGACGCGCGc -3'
miRNA:   3'- uaGCUC-CGGcCAU---AGCUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 5311 0.71 0.308175
Target:  5'- gGUCGAGGCC-GUAggccgCGAgcaCGugGCGCAg -3'
miRNA:   3'- -UAGCUCCGGcCAUa----GCU---GUugCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 5249 0.7 0.332136
Target:  5'- uUCGgccggcAGGUCGGgGUCGGCAAUGCGUc -3'
miRNA:   3'- uAGC------UCCGGCCaUAGCUGUUGCGCGu -5'
26867 3' -56.1 NC_005809.1 + 9751 0.7 0.340422
Target:  5'- cGUUGcGGCUGGUGUaguccgacCGGCAgACGCGCAg -3'
miRNA:   3'- -UAGCuCCGGCCAUA--------GCUGU-UGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 23270 0.7 0.357438
Target:  5'- gGUC-AGGUCGGUGUCGGCGuGCGC-CAc -3'
miRNA:   3'- -UAGcUCCGGCCAUAGCUGU-UGCGcGU- -5'
26867 3' -56.1 NC_005809.1 + 23721 0.7 0.366167
Target:  5'- gGUCGcGGGCCaGUGccUCGGUGGCGCGCAg -3'
miRNA:   3'- -UAGC-UCCGGcCAU--AGCUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 5575 0.69 0.415781
Target:  5'- uGUCGAGGCCGGcauacuccacgaauuUGgcccacUCGGCGGgGUGCGu -3'
miRNA:   3'- -UAGCUCCGGCC---------------AU------AGCUGUUgCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 8124 0.68 0.431253
Target:  5'- -gCGcGGCCGGcguugGUUGugGGCGUGCGg -3'
miRNA:   3'- uaGCuCCGGCCa----UAGCugUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 4557 0.68 0.431253
Target:  5'- cUUGAGGCCGaaGUCGcCGAgGCGCu -3'
miRNA:   3'- uAGCUCCGGCcaUAGCuGUUgCGCGu -5'
26867 3' -56.1 NC_005809.1 + 28337 0.68 0.431253
Target:  5'- cUCGAuGGCCuuGGccucGUCgGGCAGCGCGCGg -3'
miRNA:   3'- uAGCU-CCGG--CCa---UAG-CUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 42019 0.68 0.441093
Target:  5'- gGUCGAGGCgUGGUuuuucagCGGCc-CGCGCAc -3'
miRNA:   3'- -UAGCUCCG-GCCAua-----GCUGuuGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 17704 0.68 0.441093
Target:  5'- cUCG-GGCCGGgaaaugcccaUcgCGGCAagcuGCGCGCAu -3'
miRNA:   3'- uAGCuCCGGCC----------AuaGCUGU----UGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 19035 0.68 0.441093
Target:  5'- -cCGAGGCC---AUCGACcGCGUGCGc -3'
miRNA:   3'- uaGCUCCGGccaUAGCUGuUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 6177 0.68 0.470326
Target:  5'- -gCGcAGGCCGGUcuugccgcagcGUuugcaggUGACGGCGCGCGg -3'
miRNA:   3'- uaGC-UCCGGCCA-----------UA-------GCUGUUGCGCGU- -5'
26867 3' -56.1 NC_005809.1 + 5553 0.68 0.471351
Target:  5'- gGUCGcccGCCacGGUAUCGACGGCGC-CAa -3'
miRNA:   3'- -UAGCuc-CGG--CCAUAGCUGUUGCGcGU- -5' 
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Note:
      When operating RNAhybrid, the pipeline first calculates the perfect minimum free energy (Perfect mfe *) of a putative miRNA when the entire putative miRNA binds to a perfectly complementary target site, then it calculates the minimum free energy of RNA duplex (mfe of the miRNA/mRNA duplex), abbreviated as Rd_mfe. An alignment for which the Rd_mfe to its correspondent Perfect mfe ratio (R_P_ratio #) is more than 66% is regarded as a positive alignment as described by Krek et al. (21). The P_value is calculated by RNAhybrid.

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TDL, Institute of Biomedical Science, Academia Sinica, Taipei, Taiwan.
Copyright © 2007 TDL. All rights reserved.